Thermodynamic characterization and nearest neighbor parameters for RNA duplexes under molecular crowding conditions (Q64230071)

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English	Thermodynamic characterization and nearest neighbor parameters for RNA duplexes under molecular crowding conditions	No description defined

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instance of

scholarly article

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title

Thermodynamic characterization and nearest neighbor parameters for RNA duplexes under molecular crowding conditions (English)

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main subject

nearest neighbour algorithm

1 reference

based on heuristic

inferred from title

author

Brent M Znosko

series ordinal

2

object named as

Brent M Znosko

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author name string

Miranda S Adams

series ordinal

1

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language of work or name

English

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publication date

23 April 2019

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number of pages

9

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based on heuristic

inferred from page(s)

published in

Nucleic Acids Research

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volume

47

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issue

7

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page(s)

3658-3666

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copyright license

Creative Commons Attribution-NonCommercial 4.0 International

start time

30 January 2019

1 reference

stated in

April 2022 Public Data File from Crossref

copyright status

copyrighted

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cites work

Improved free-energy parameters for predictions of RNA duplex stability

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Stability of ribonucleic acid double-stranded helices

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Recognition and catalysis in nucleic acid chemistry

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Improved nearest-neighbor parameters for predicting DNA duplex stability

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Thermodynamic characterization of interactions of native bovine serum albumin with highly excluded (glycine betaine) and moderately accumulated (urea) solutes by a novel application of vapor pressure osmometry

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Investigation of the structural basis for thermodynamic stabilities of tandem GU mismatches: solution structure of (rGAGGUCUC)2 by two-dimensional NMR and simulated annealing

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reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

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Thermodynamic parameters for an expanded nearest-neighbor model for formation of RNA duplexes with Watson-Crick base pairs

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

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Effects of hydration, ion release, and excluded volume on the melting of triplex and duplex DNA

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Non–coding RNA genes and the modern RNA world

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Mfold web server for nucleic acid folding and hybridization prediction

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Vienna RNA secondary structure server

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reference URL

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Hydration of short DNA, RNA and 2'-OMe oligonucleotides determined by osmotic stressing

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PubMed

reference URL

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12 December 2020

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The effect of molecular crowding with nucleotide length and cosolute structure on DNA duplex stability

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PubMed

reference URL

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Excluded-volume effect of inert macromolecules on the melting of nucleic acids

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PubMed

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Nearest neighbor parameters for inosine x uridine pairs in RNA duplexes

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Consecutive GC base pairs determine the energy barrier of DNA duplex formation under molecularly crowded conditions

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Thermodynamic characterization of single mismatches found in naturally occurring RNA.

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Capture of cationic ligands bound diffusely to base pairs during DNA refolding

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Conformation and the sodium ion condensation on DNA and RNA structures in the presence of a neutral cosolute as a mimic of the intracellular media

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Macromolecular crowding and confinement: biochemical, biophysical, and potential physiological consequences

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Thermodynamic characterization of tandem mismatches found in naturally occurring RNA

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RNAstructure: software for RNA secondary structure prediction and analysis

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

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Molecular crowding stabilizes folded RNA structure by the excluded volume effect

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

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Optical Melting Measurements of Nucleic Acid Thermodynamics

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

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inferred from PubMed ID database lookup

Dimerization of Nucleic Acid Hairpins in the Conditions Caused by Neutral Cosolutes

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Hydration changes upon DNA folding studied by osmotic stress experiments

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RNA catalysis through compartmentalization.

1 reference

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Effects of salt, polyethylene glycol, and locked nucleic acids on the thermodynamic stabilities of consecutive terminal adenosine mismatches in RNA duplexes

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

RNAstructure: Web servers for RNA secondary structure prediction and analysis

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Effects of molecular crowding on the structures, interactions, and functions of nucleic acids.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Noncanonical structures and their thermodynamics of DNA and RNA under molecular crowding: beyond the Watson-Crick double helix

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stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Hierarchy of RNA functional dynamics

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Molecular-crowding effects on single-molecule RNA folding/unfolding thermodynamics and kinetics

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Long non-coding RNA CCAL regulates colorectal cancer progression by activating Wnt/β-catenin signalling pathway via suppression of activator protein 2α.

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PubMed

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https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

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Challenge of mimicking the influences of the cellular environment on RNA structure by PEG-induced macromolecular crowding

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Mimicking the in vivo Environment--The Effect of Crowding on RNA and Biomacromolecular Folding and Activity

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PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Cooperative RNA Folding under Cellular Conditions Arises From Both Tertiary Structure Stabilization and Secondary Structure Destabilization

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

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12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Impact of bistrand abasic sites and proximate orientation on DNA global structure and duplex energetics.

1 reference

stated in

PubMed

reference URL

https://pubmed.ncbi.nlm.nih.gov/30698818

retrieved

12 December 2020

based on heuristic

inferred from PubMed ID database lookup

Identifiers

DOI

10.1093/NAR/GKZ019

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PMC publication ID

6468164

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PubMed publication ID

30698818

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